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Sample GSM1511 Query DataSets for GSM1511
Status Public on Apr 18, 2002
Title prp4-TempShift-120mins_3
Sample type RNA
 
Channel 1
Source name SRY4-1a (prp4-1) @ 37 deg for 120 mins
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
Channel 2
Source name SS330 (wt) @ 37 deg for 120 mins
Organism Saccharomyces cerevisiae
Extracted molecule total RNA
 
 
Description Prp4-1 and wt strains were grown at 26deg to A600 of 1.0, then an equal volume of 48deg media was added to bring the temperature to 37deg. Both strains were allowed to grow at 37deg and samples were taken at 0 (before shift), 5, 15, 30, 60, and 120 mins after shift to restrictive temperature.
Lot batch = Slide4-1052
 
Submission date Mar 19, 2002
Last update date May 27, 2005
Contact name Manuel Ares
E-mail(s) ares@biology.ucsc.edu
Phone 831 459-4628
Organization name UC Santa Cruz
Street address
City Santa Cruz
State/province CA
ZIP/Postal code 95064
Country USA
 
Platform ID GPL108
Series (1)
GSE34 Prp4-1 temperature shift

Data table header descriptions
ID_REF
X_COORD X-coordinate of spot
Y_COORD Y-coordinate of spot
SPOT_SIZE Size of the spot (diameter, in microns)
CH2_MEDIAN Channel 2 (Cy5/635) median pixel intensity - feature
CH2_MEAN Channel 2 (Cy5/635) mean pixel intensity - feature
CH2_SD Channel 2 (Cy5/635) standard deviation of pixel intensities - feature
CH2_BKD_MEDIAN Channel 2 (Cy5/635) median background intensity
CH2_BKD_MEAN Channel 2 (Cy5/635) mean background intensity
CH2_BKD_SD Channel 2 (Cy5/635) standard deviation of background
CH2_PERCNT_PIX_1SD Channel 2 (Cy5/635) percent of pixels 1 StDev above background
CH2_PERCNT_PIX_2SD Channel 2 (Cy5/635) percent of pixels 2 StDevs above background
CH2_PERCNT_PIX_SAT Channel 2 (Cy5/635) percent of pixels saturated
CH1_MEDIAN Channel 1 (Cy3/532) median pixel intensity - feature
CH1_MEAN Channel 1 (Cy3/532) mean pixel intensity - feature
CH1_SD Channel 1 (Cy3/532) standard deviation of pixel intensities - feature
CH1_BKD_MEDIAN Channel 1 (Cy3/532) median background intensity
CH1_BKD_MEAN Channel 1 (Cy3/532) mean background intensity
CH1_BKD_SD Channel 1 (Cy3/532) standard deviation of background
CH1_PERCNT_PIX_1SD Channel 1 (Cy3/532) percent of pixels 1 StDev above background
CH1_PERCNT_PIX_2SD Channel 1 (Cy3/532) percent of pixels 2 StDevs above background
CH1_PERCNT_PIX_SAT Channel 1 (Cy3/532) percent of pixels saturated
RATIO_MEDIANS Ratio of medians (Ch2/Ch1)
RATIO_MEANS Ratio of means (Ch2/Ch1)
MEDIAN_RATIOS Median of ratios
MEAN_RATIOS Mean of ratios
RATIO_SD Ratio standard deviation
RGN_RATIO Regression ratio
RGN_SQ_RATIO Regression square ratio
SPOT_PIXELS Number of feature pixels
BKD_PIXELS Number of background pixels
LOG_RATIO Log ratio (base 2)
CH2_MED_MINUS_BKD Channel 2 (Cy5/635) background subtracted median feature intensity
CH1_MED_MINUS_BKD Channel 1 (Cy3/532) background subtracted median feature intensity
CH2_MEAN_MINUS_BKD Channel 2 (Cy5/635) background subtracted mean feature intensity
CH1_MEAN_MINUS_BKD Channel 1 (Cy3/532) background subtracted mean feature intensity
FLAG User defined flag (default=0)
NORM_RATIO Normalized ratio of medians
VALUE Normalized log ratio (base 2)
MEAN_VALUE Average normalized log ratio for replicate spots
SD_VALUE Standard deviation of average normalized log ratio
NUM_REPLICATES Number of replicate spots used in average normalized log ratio

Data table
ID_REF X_COORD Y_COORD SPOT_SIZE CH2_MEDIAN CH2_MEAN CH2_SD CH2_BKD_MEDIAN CH2_BKD_MEAN CH2_BKD_SD CH2_PERCNT_PIX_1SD CH2_PERCNT_PIX_2SD CH2_PERCNT_PIX_SAT CH1_MEDIAN CH1_MEAN CH1_SD CH1_BKD_MEDIAN CH1_BKD_MEAN CH1_BKD_SD CH1_PERCNT_PIX_1SD CH1_PERCNT_PIX_2SD CH1_PERCNT_PIX_SAT RATIO_MEDIANS RATIO_MEANS MEDIAN_RATIOS MEAN_RATIOS RATIO_SD RGN_RATIO RGN_SQ_RATIO SPOT_PIXELS BKD_PIXELS LOG_RATIO CH2_MED_MINUS_BKD CH1_MED_MINUS_BKD CH2_MEAN_MINUS_BKD CH1_MEAN_MINUS_BKD FLAG NORM_RATIO VALUE MEAN_VALUE SD_VALUE NUM_REPLICATES
1 2280 24150 130 70 89 65 62 62 10 43 23 0 236 761 1268 42 43 9 100 100 0 0.041 0.038 0.044 0.051 2.977 0.013 0.071 120 671 -4.6 8 194 27 719 0 0.115541025 -3.113522895 -4.804778885 2.002489628 31
2 2440 24150 100 81 146 229 61 61 10 63 48 0 56 67 42 44 45 10 55 33 0 1.667 3.696 1.375 1.698 2.996 5.891 0.709 80 367 0.737 20 12 85 23 -50 -10000 -10000 0.418271875 0.982336954 23
3 2630 24150 120 110 134 105 61 62 10 99 96 0 84 88 25 44 45 10 95 82 0 1.225 1.659 1.273 1.381 2.102 3.634 0.453 120 525 0.293 49 40 73 44 0 1.006032212 0.008676499 -0.278441548 0.287118047 2
4 2800 24140 80 114 263 410 63 64 10 94 88 0 82 116 92 45 46 10 96 82 0 1.378 2.817 1.356 1.506 2.495 4.412 0.825 52 280 0.463 51 37 200 71 -50 -10000 -10000 0.418271875 0.982336954 23
5 2980 24140 130 219 220 38 64 65 10 99 99 0 170 167 33 46 47 9 100 97 0 1.25 1.289 1.269 1.307 1.354 1.284 0.887 120 540 0.322 155 124 156 121 0 1.078111678 0.10850663 -0.026978158 0.499713961 16
6 3150 24120 130 28387 27163 4320 68 87 237 100 100 0 49441 47638 6316 47 63 241 100 100 0 0.573 0.569 0.572 0.566 1.101 0.572 0.989 120 515 -0.803 28319 49394 27095 47591 0 0.501742896 -0.99497981 -1.108597992 0.172380395 16
7 3340 24120 140 25119 21602 8147 69 86 222 98 97 0 50281 42225 17190 46 61 227 96 95 0 0.499 0.511 0.506 0.584 1.782 0.501 0.989 156 583 -1.004 25050 50235 21533 42179 0 0.436447996 -1.196118333 -1.246845632 0.092814802 16
8 3490 24110 100 91 173 293 68 70 17 60 37 0 98 110 59 46 48 10 90 83 0 0.442 1.641 0.547 0.594 3.384 4.852 0.6 80 360 -1.177 23 52 105 64 -50 -10000 -10000 0.418271875 0.982336954 23
9 3690 24110 130 18928 18291 3366 68 70 23 100 100 0 485 475 91 46 48 11 100 100 0 42.961 42.478 42.572 42.747 1.173 42.943 0.964 120 548 5.425 18860 439 18223 429 0 35.83687318 5.16337286 4.996606417 0.166766444 2
10 3850 24100 130 4319 4396 711 67 68 13 100 100 0 911 923 152 47 48 10 100 100 0 4.921 4.942 5.005 4.951 1.121 5.01 0.969 120 544 2.299 4252 864 4329 876 0 4.232539611 2.08152357 0.653380295 1.428143275 2
11 4020 24090 100 86 183 302 66 67 12 63 42 0 57 69 50 47 49 9 50 32 0 2 5.318 2.467 2.167 4.245 6.423 0.81 80 379 1 20 10 117 22 -50 -10000 -10000 0.418271875 0.982336954 23
12 4190 24090 100 82 207 402 65 66 10 67 42 0 51 73 73 47 49 11 30 15 0 4.25 5.462 3.643 2.603 3.471 5.638 0.909 80 399 2.087 17 4 142 26 -50 -10000 -10000 0.418271875 0.982336954 23
13 4370 24080 100 78 215 442 65 65 11 53 36 0 52 71 74 46 48 12 32 16 0 2.167 6 2.268 2.281 3.955 6.198 0.904 80 413 1.115 13 6 150 25 -50 -10000 -10000 0.418271875 0.982336954 23
14 4540 24080 100 79 213 417 66 66 10 56 41 0 52 76 86 46 47 9 35 21 0 2.167 4.9 2.588 2.47 3.723 5.001 0.906 80 396 1.115 13 6 147 30 -50 -10000 -10000 0.418271875 0.982336954 23
15 4730 24070 120 2711 2684 279 64 65 10 100 100 0 207 207 36 47 48 9 100 99 0 16.544 16.375 16.818 16.888 1.266 16.498 0.924 120 515 4.048 2647 160 2620 160 0 13.10741528 3.712311316 3.318327645 0.393983671 2
16 4910 24070 120 180 188 54 63 64 10 100 100 0 68 72 18 47 48 9 82 60 0 5.571 5 5.015 5.311 1.895 5.174 0.515 120 438 2.478 117 21 125 25 0 3.073052686 1.619672502 1.293155791 0.685803963 11
17 5080 24060 130 95 103 39 62 63 9 95 87 0 93 95 25 46 47 9 96 90 0 0.702 0.837 0.711 0.757 1.925 1.121 0.377 120 484 -0.51 33 47 41 49 -50 -10000 -10000 0.892821027 0.627386662 10
18 5260 24050 120 79 107 107 61 61 9 74 48 0 78 82 25 47 49 10 91 70 0 0.581 1.314 0.667 0.678 2.979 4.282 0.385 120 448 -0.784 18 31 46 35 -50 -10000 -10000 1.086688002 0.783506229 15
19 5430 24050 130 542 551 93 60 61 9 100 100 0 162 163 31 47 48 10 99 99 0 4.191 4.233 4.105 4.337 1.315 4.418 0.877 120 473 2.067 482 115 491 116 0 3.240039329 1.696011325 1.477614586 0.342252369 18
20 5600 24040 130 17373 17187 2847 64 76 118 100 100 0 14614 14423 2365 47 52 37 100 100 0 1.188 1.191 1.203 1.194 1.107 1.188 0.984 120 503 0.249 17309 14567 17123 14376 0 1.039197318 0.055469613 -0.008354379 0.092356312 20

Total number of rows: 5761

Table truncated, full table size 1126 Kbytes.




Supplementary data files not provided

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